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Tissue-specific BMAL1 cistromes reveal that rhythmic transcription is associated with rhythmic enhancer–enhancer interactions
JR Beytebiere, AJ Trott, BJ Greenwell… - Genes & …, 2019 - genesdev.cshlp.org
The mammalian circadian clock relies on the transcription factor CLOCK: BMAL1 to
coordinate the rhythmic expression of thousands of genes. Consistent with the various …
coordinate the rhythmic expression of thousands of genes. Consistent with the various …
Prioritizing candidate disease miRNAs by topological features in the miRNA target–dysregulated network: Case study of prostate cancer
Abstract Recently, microRNAs (miRNA), small noncoding RNAs, have taken center stage in
the field of human molecular oncology. However, their roles in tumor biology remain largely …
the field of human molecular oncology. However, their roles in tumor biology remain largely …
A deep learning model to identify gene expression level using cobinding transcription factor signals
L Zhang, Y Yang, L Chai, Q Li, J Liu… - Briefings in …, 2022 - academic.oup.com
Gene expression is directly controlled by transcription factors (TFs) in a complex
combination manner. It remains a challenging task to systematically infer how the …
combination manner. It remains a challenging task to systematically infer how the …
[HTML][HTML] Full-Length Transcriptome Survey and Expression Analysis of Cassia obtusifolia to Discover Putative Genes Related to Aurantio-Obtusin Biosynthesis, Seed …
Y Deng, H Zheng, Z Yan, D Liao, C Li, J Zhou… - International Journal of …, 2018 - mdpi.com
The seed is the pharmaceutical and breeding organ of Cassia obtusifolia, a well-known
medical herb containing aurantio-obtusin (a kind of anthraquinone), food, and landscape. In …
medical herb containing aurantio-obtusin (a kind of anthraquinone), food, and landscape. In …
Cooperation of ATF4 and CTCF promotes adipogenesis through transcriptional regulation
Y Chen, R He, Z Han, Y Wu, Q Wang, X Zhu… - Cell biology and …, 2022 - Springer
Adipogenesis is a multi-step process orchestrated by activation of numerous TFs, whose
cooperation and regulatory network remain elusive. Activating transcription factor 4 (ATF4) is …
cooperation and regulatory network remain elusive. Activating transcription factor 4 (ATF4) is …
Transcriptional regulation of CYP2C19 and its role in altered enzyme activity
C Rao S. Uppugunduri, Y Daali… - Current drug …, 2012 - benthamdirect.com
Cytochrome P450 2C19 (CYP2C19) is involved in the metabolism of several drugs that are
currently in clinical use. The gene encoding CYP2C19 is polymorphic with the existence of …
currently in clinical use. The gene encoding CYP2C19 is polymorphic with the existence of …
Revealing transcription factor and histone modification co-localization and dynamics across cell lines by integrating ChIP-seq and RNA-seq data
Background Interactions among transcription factors (TFs) and histone modifications (HMs)
play an important role in the precise regulation of gene expression. The context specificity of …
play an important role in the precise regulation of gene expression. The context specificity of …
Computational identification of tissue-specific transcription factor cooperation in ten cattle tissues
L Steuernagel, C Meckbach, F Heinrich, S Zeidler… - PLoS …, 2019 - journals.plos.org
Transcription factors (TFs) are a special class of DNA-binding proteins that orchestrate gene
transcription by recruiting other TFs, co-activators or co-repressors. Their combinatorial …
transcription by recruiting other TFs, co-activators or co-repressors. Their combinatorial …
Predictive models of spatial transcriptional response to high salinity
Plants are exposed to a variety of environmental conditions, and their ability to respond to
environmental variation depends on the proper regulation of gene expression in an organ …
environmental variation depends on the proper regulation of gene expression in an organ …
PC-TraFF: identification of potentially collaborating transcription factors using pointwise mutual information
C Meckbach, R Tacke, X Hua, S Waack… - BMC …, 2015 - Springer
Abstract Background Transcription factors (TFs) are important regulatory proteins that
govern transcriptional regulation. Today, it is known that in higher organisms different TFs …
govern transcriptional regulation. Today, it is known that in higher organisms different TFs …